CoV-GLUE | Mutations | Mutation
Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):
ORF | CodonNum | Mut | ORF1abMut | MutType | RefCodon | MutCodon | AACount | CodonCount | CodonProp | Genome Position |
ORF3a | 64 | T64I | nonsyn | aCc | aTc | 4580 | 4579 | 0.999782 | 25582-25584 |
Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):
ORF | CodonNum | Mut | RefCodon | MutCodon | CodonCount | AACount | Lineage | LineageCodonProp |
ORF3a | 64 | T64I | aCc | aTc | 4579 | 4580 | All | 0.000876 |
ORF3a | 64 | T64I | aCc | aTc | 833 | 833 | AY.4 | 0.001297 |
ORF3a | 64 | T64I | aCc | aTc | 750 | 750 | B.1.177.58 | 0.998668 |
ORF3a | 64 | T64I | aCc | aTc | 634 | 634 | B.1.1.7 | 0.000568 |
ORF3a | 64 | T64I | aCc | aTc | 405 | 405 | B.1.617.2 | 0.001525 |
ORF3a | 64 | T64I | aCc | aTc | 378 | 378 | AY.43 | 0.001675 |
ORF3a | 64 | T64I | aCc | aTc | 234 | 234 | AY.102 | 0.006204 |
ORF3a | 64 | T64I | aCc | aTc | 216 | 216 | AY.3 | 0.002148 |
ORF3a | 64 | T64I | aCc | aTc | 172 | 172 | B.1.626 | 0.982857 |
ORF3a | 64 | T64I | aCc | aTc | 74 | 74 | B.1 | 0.000678 |
ORF3a | 64 | T64I | aCc | aTc | 66 | 66 | B.1.36.35 | 0.171875 |
ORF3a | 64 | T64I | aCc | aTc | 64 | 64 | AY.47 | 0.001991 |
ORF3a | 64 | T64I | aCc | aTc | 61 | 61 | AY.39 | 0.001507 |
ORF3a | 64 | T64I | aCc | aTc | 50 | 50 | AY.103 | 0.00031 |
ORF3a | 64 | T64I | aCc | aTc | 44 | 44 | B.1.2 | 0.000387 |
ORF3a | 64 | T64I | aCc | aTc | 40 | 40 | AY.44 | 0.000243 |
ORF3a | 64 | T64I | aCc | aTc | 35 | 35 | AY.5 | 0.000723 |
ORF3a | 64 | T64I | aCc | aTc | 30 | 30 | AY.20 | 0.001166 |
ORF3a | 64 | T64I | aCc | aTc | 27 | 27 | B.1.177 | 0.000356 |
ORF3a | 64 | T64I | aCc | aTc | 26 | 26 | AY.25 | 0.000156 |
ORF3a | 64 | T64I | aCc | aTc | 19 | 19 | AY.34.1 | 0.009689 |
ORF3a | 64 | T64I | aCc | aTc | 19 | 19 | B.1.177.21 | 0.001453 |
ORF3a | 64 | T64I | aCc | aTc | 17 | 17 | AY.26 | 0.000481 |
ORF3a | 64 | T64I | aCc | aTc | 17 | 17 | B.1.509 | 0.014719 |
ORF3a | 64 | T64I | aCc | aTc | 15 | 15 | AY.33 | 0.001002 |
ORF3a | 64 | T64I | aCc | aTc | 14 | 14 | B.1.234 | 0.001847 |
ORF3a | 64 | T64I | aCc | aTc | 11 | 11 | AY.100 | 0.000506 |
ORF3a | 64 | T64I | aCc | aTc | 11 | 11 | AY.120 | 0.000409 |
ORF3a | 64 | T64I | aCc | aTc | 11 | 11 | P.1 | 0.000173 |
ORF3a | 64 | T64I | aCc | aTc | 10 | 10 | AY.29 | 0.000158 |
ORF3a | 64 | T64I | aCc | aTc | 9 | 9 | AY.117 | 0.000761 |
ORF3a | 64 | T64I | aCc | aTc | 9 | 9 | AY.23 | 0.000628 |
ORF3a | 64 | T64I | aCc | aTc | 9 | 9 | AY.36 | 0.001334 |
ORF3a | 64 | T64I | aCc | aTc | 9 | 9 | AY.46 | 0.000937 |
ORF3a | 64 | T64I | aCc | aTc | 9 | 9 | AY.98.1 | 0.000436 |
ORF3a | 64 | T64I | aCc | aTc | 8 | 8 | AY.42 | 0.000322 |
ORF3a | 64 | T64I | aCc | aTc | 8 | 8 | AY.91 | 0.005844 |
ORF3a | 64 | T64I | aCc | aTc | 8 | 8 | B.1.1 | 0.000145 |
ORF3a | 64 | T64I | aCc | aTc | 7 | 7 | B.1.351 | 0.000208 |
ORF3a | 64 | T64I | aCc | aTc | 7 | 7 | B.1.526 | 0.000165 |
ORF3a | 64 | T64I | aCc | aTc | 6 | 6 | AY.45 | 0.00073 |
ORF3a | 64 | T64I | aCc | aTc | 6 | 6 | AY.93 | 0.001638 |
ORF3a | 64 | T64I | aCc | aTc | 6 | 6 | B.1.1.318 | 0.001811 |
ORF3a | 64 | T64I | aCc | aTc | 6 | 6 | B.1.639 | 0.130435 |
ORF3a | 64 | T64I | aCc | aTc | 5 | 5 | AY.118 | 0.000313 |
ORF3a | 64 | T64I | aCc | aTc | 5 | 5 | AY.119 | 0.000177 |
ORF3a | 64 | T64I | aCc | aTc | 5 | 5 | AY.92 | 0.001436 |
ORF3a | 64 | T64I | aCc | aTc | 5 | 5 | AY.98 | 0.000395 |
ORF3a | 64 | T64I | aCc | aTc | 5 | 5 | B.1.427 | 0.000252 |
ORF3a | 64 | T64I | aCc | aTc | 5 | 5 | B.1.575 | 0.001517 |
ORF3a | 64 | T64I | aCc | aTc | 5 | 5 | B.1.634 | 0.017123 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 4 | 0.166667 | |
ORF3a | 64 | T64I | aCc | aTc | 4 | 4 | AY.61 | 0.000419 |
ORF3a | 64 | T64I | aCc | aTc | 4 | 4 | AY.84 | 0.00175 |
ORF3a | 64 | T64I | aCc | aTc | 4 | 4 | B.1.177.81 | 0.000757 |
ORF3a | 64 | T64I | aCc | aTc | 4 | 4 | B.1.596 | 0.000349 |
ORF3a | 64 | T64I | aCc | aTc | 4 | 4 | P.1.10 | 0.001078 |
ORF3a | 64 | T64I | aCc | aTc | 4 | 4 | P.1.14 | 0.000191 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | AY.1 | 0.001187 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | AY.10 | 0.00159 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | AY.110 | 0.000338 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | AY.34 | 0.000291 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | AY.35 | 0.000699 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | AY.5.4 | 0.00083 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | AY.7.1 | 0.000338 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | AY.75 | 0.000168 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | AY.9.2 | 0.00011 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | B.1.1.519 | 0.000119 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | B.1.146 | 0.012712 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | B.1.221 | 0.000213 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | B.1.429 | 0.000071 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | B.1.466.2 | 0.001174 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | B.1.595 | 0.000783 |
ORF3a | 64 | T64I | aCc | aTc | 3 | 3 | C.37 | 0.000348 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | AY.113 | 0.000285 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | AY.116 | 0.000574 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | AY.24 | 0.000862 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | AY.28 | 0.003781 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | AY.4.5 | 0.000215 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | AY.46.1 | 0.002053 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | AY.75.1 | 0.000361 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | AY.9.1 | 0.000167 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | B.1.160 | 0.000062 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | B.1.617.1 | 0.000258 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | B.1.621 | 0.000177 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | D.2 | 0.00015 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | P.1.17.1 | 0.00175 |
ORF3a | 64 | T64I | aCc | aTc | 2 | 2 | Q.8 | 0.00033 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | A.1 | 0.000282 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.101 | 0.00049 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.106 | 0.000335 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.107 | 0.000466 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.111 | 0.000183 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.13 | 0.000161 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.16.1 | 0.00047 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.23.1 | 0.000417 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.3.1 | 0.000085 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.4.2 | 0.000022 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.46.4 | 0.000165 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.5.3 | 0.000337 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.55 | 0.000917 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.6 | 0.000041 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.73 | 0.000665 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.74 | 0.000116 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.82 | 0.001357 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.85 | 0.000427 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | AY.9 | 0.000068 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.1.1 | 0.000327 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.1.222 | 0.000204 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.1.244 | 0.015385 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.1.25 | 0.000569 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.1.266 | 0.012195 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.1.274 | 0.005051 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.1.277 | 0.000759 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.1.28 | 0.000311 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.1.3 | 0.008696 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.1.420 | 0.001006 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.1.464 | 0.001473 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.1.507 | 0.008696 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.177.73 | 0.000566 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.243 | 0.00007 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.279 | 0.000514 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.291 | 0.019231 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.36 | 0.000146 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.362 | 0.001541 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.396 | 0.000706 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.400 | 0.000429 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.510 | 0.026316 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.565 | 0.00081 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.599 | 0.00365 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.625 | 0.002353 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.1.627 | 0.00202 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.40 | 0.000364 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | B.6 | 0.00091 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | C.16 | 0.00106 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | C.36.1 | 0.004149 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | P.1.6 | 0.001946 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | P.2 | 0.000187 |
ORF3a | 64 | T64I | aCc | aTc | 1 | 1 | R.1 | 0.00009 |
CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk
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